Find open-source science resources

An object-oriented, webGL based JavaScript library for online molecular

protein folding model using only general-purpose transformer layers, scaled

protein (RBP) binding motifs. RBPBench can be used for a variety

See the upstream model card for full details, training data

protein structure search using a learned 3Di structural alphabet (VQ-VAE) that

kTYPr is an in silico tool designed to map the

protein-protein interaction (PPI) networks. GCN inference relies on the popular

A seamless interface to the MEME Suite family of tools

protein quantifications without the need for imputation. The uncertainty of the protein

The locus-to-gene (L2G) model prioritises likely causal genes

Suite of tools to handle gene annotations in any GTF/GFF

Predicts transcription factor binding sites in up to 316 vertebrate

BgeeCall allows to generate present/absent gene expression calls without using

Model for Latent Space Optimization and Generation of Proteins - github repo

Senba is a source-anchored adaptation of MarS-FM (Valence

Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation

MiRA (Multilayer Interactive Rendering Application) is a free, browser-based

COSMOS (Causal Oriented Search of Multi-Omic Space) is a

provides the pretrained Protenix v2 model weights for protein structure prediction.

Protein Data Bank structures into 3D-printable models. Each polymer

A teaching platform for computer-aided drug design (CADD) using

Many full-length RNAs, particularly mRNAs, exceed the ~1K context

The 'msa' package provides a unified R/Bioconductor interface to the

SQUARNA is a tool for RNA secondary structure prediction. It

proteins in a spatially-resolved fashion. These measurements can be visualised

Provides utilities for identifying drug-target interactions for sets of

A structural pharmacology workbench for cognition-related CNS targets, built

Local Python sequence utilities for nucleotide composition, DNA and RNA

proteins and regions from sequence, with GPU/CPU inference, trajectory export

protein, structure, and single-cell tasks with reproducible CLIs and pretrained

TEffectBayes is a Nextflow-based pipeline that uses a multi

Local Windows-friendly R Shiny application for RNA-seq differential

protein structures. Membrane Visual QC provides planar membrane-relative geometry

chimeraviz manages data from fusion gene finders and provides useful

OmniTCR is a component-aware autoregressive foundation model for learning

AESTETIK is a deep learning model that jointly integrates spatial

PertMind is a biological language model built around a central

protein language model for the phosphotransferase superfamily (EC 2.7.-: protein

This model is a fine-tuned version of ESMC-600M

!OpenDDE banner

protein variant classifier that predicts whether a mutated protein sequence

Provides a comprehensive suite of functions to design and annotate

SpaceTrooper performs Quality Control analysis using data driven GLM models

Curated collection of agent skills for scientific research (InternScience, 493

UBio-MolFM is a foundation-model suite for molecular modeling

protein embeddings and bidirectional transformer architecture (Cantini Lab, 148+ stars

protein language models into the R environment. Provides unified interfaces

protein sequences using ESM2 embeddings and a trained 1-Dimensional

protein embeddings where biological similarity maps to embedding proximity. Intended